genome.fa.s9605.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   

This is table  4  of  35  ( 4090 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559811--559850	2	20.0	2	85	10	55	45	0	5	50	1.23
564669--564788	61	2.0	60	93	4	206	46	7	5	40	1.56
564872--564901	12	2.4	13	94	5	53	56	0	3	40	1.16
568782--568814	5	6.6	5	92	0	57	81	3	0	15	0.80
569231--569329	29	3.6	25	78	15	99	56	11	13	19	1.66
570861--570905	3	14.3	3	90	9	72	64	0	0	35	0.94
575613--575831	43	5.1	42	81	4	260	32	22	22	22	1.98
575614--575831	85	2.5	86	85	3	280	32	22	22	22	1.98
578268--578461	43	4.6	42	83	5	221	26	18	18	36	1.94
586399--586444	10	4.3	11	89	8	60	78	2	17	2	0.96
586399--586444	22	2.1	21	84	11	58	78	2	17	2	0.96
588071--588150	33	2.3	35	89	8	119	31	18	12	37	1.88
588071--588153	35	2.4	36	88	10	127	30	18	13	38	1.88
588133--588179	24	2.0	24	91	0	76	31	10	6	51	1.62
588704--588728	2	12.5	2	100	0	50	52	48	0	0	1.00
595424--595794	139	2.7	139	89	1	582	25	20	17	37	1.94
608824--608855	16	2.0	16	93	0	55	46	6	21	25	1.74
616949--616986	17	2.2	18	86	13	53	28	2	7	60	1.38
618403--618444	22	2.0	22	85	4	59	33	4	9	52	1.55
619810--619879	34	2.1	32	86	5	95	22	30	15	31	1.95
619832--619894	34	2.0	32	81	12	76	30	26	14	28	1.95
620220--620274	21	2.7	21	88	2	76	27	25	23	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
620311--620407	20	4.7	21	74	13	67	23	18	32	24	1.97
620485--620544	29	2.0	31	93	6	106	43	15	6	35	1.72
621715--621760	20	2.4	19	85	7	58	30	13	6	50	1.66
622607--622676	34	2.1	32	86	5	95	22	30	15	31	1.95
622629--622691	34	2.0	32	81	12	76	30	26	14	28	1.95
622942--622988	20	2.3	21	92	3	78	25	27	21	25	1.99
624279--624348	34	2.1	32	86	5	95	22	30	15	31	1.95
624699--624769	20	3.5	20	84	0	88	30	22	26	19	1.98
624807--624849	22	1.9	23	86	13	63	20	20	30	27	1.98
624793--624891	21	4.8	20	78	13	92	23	19	33	24	1.97
624793--624891	42	2.4	42	82	3	110	23	19	33	24	1.97
624971--625028	30	2.0	29	90	10	91	44	15	5	34	1.69
624971--625030	29	2.0	30	93	6	104	43	15	6	35	1.72
626281--626326	20	2.4	19	85	7	58	30	13	6	50	1.66
628478--628525	21	2.3	21	96	0	87	27	27	20	25	1.99
628667--628770	20	5.4	19	79	15	106	24	21	31	23	1.98
628673--628714	16	2.7	15	89	7	66	23	21	28	26	1.99
628845--628900	26	2.0	29	90	10	91	46	17	1	33	1.59
631386--631433	21	2.3	21	92	0	78	29	27	18	25	1.98
631608--631747	21	6.7	21	93	0	235	25	19	35	20	1.96
631608--631747	42	3.3	42	97	0	262	25	19	35	20	1.96
631827--631884	30	2.0	29	90	10	91	44	17	5	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631827--631886	29	2.0	30	93	6	104	43	16	6	33	1.74
634419--634465	21	2.2	21	96	0	85	25	25	25	23	2.00
634573--634713	42	3.4	42	91	5	207	21	20	35	22	1.96
634573--634714	22	6.8	21	78	15	134	21	20	35	23	1.96
634791--634849	30	2.0	30	93	3	102	42	16	6	33	1.75
635935--635974	3	13.3	3	83	0	53	7	0	60	32	1.25
636106--636165	28	2.1	28	87	0	84	18	10	6	65	1.45
646807--646855	25	2.0	25	84	8	64	18	18	22	40	1.91
646917--646955	2	21.0	2	85	15	57	51	0	0	48	1.00
646966--647025	29	2.2	25	85	14	75	45	3	0	51	1.17
646977--647051	34	2.2	35	88	7	118	44	6	0	49	1.28
647017--647074	21	2.6	23	78	10	66	41	12	1	44	1.51
647065--647114	21	2.3	22	89	6	75	52	6	0	42	1.26
647757--647807	21	2.4	21	90	0	84	9	33	7	49	1.65
653593--653642	2	25.5	2	88	11	77	52	0	2	46	1.12
653593--653643	27	2.0	25	92	7	84	50	0	3	45	1.20
653680--653733	2	27.5	2	92	3	92	48	0	1	50	1.11
653808--653844	2	18.5	2	100	0	74	51	0	0	48	1.00
655054--655133	13	5.8	13	77	13	79	50	3	3	42	1.38
655155--655209	19	3.0	18	75	12	51	49	5	1	43	1.36
655185--655218	15	2.4	14	90	9	52	50	5	2	41	1.42
655113--655258	76	1.9	76	89	6	226	50	4	2	42	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655087--655283	74	2.7	75	80	10	235	49	4	4	42	1.42
655310--655376	21	3.1	21	82	2	71	49	28	1	20	1.58
655560--655614	19	2.9	18	80	20	67	49	7	1	41	1.41
655707--655735	2	14.5	2	100	0	58	51	0	0	48	1.00
655953--655986	16	2.1	16	88	0	50	58	0	2	38	1.13
656499--656545	24	2.0	24	95	0	85	51	8	2	38	1.45
656543--656635	27	3.6	25	75	20	77	45	3	0	51	1.17
656587--656625	14	2.9	14	88	3	53	43	0	0	56	0.99
656569--656635	13	5.4	12	81	15	75	47	0	0	52	1.00
656823--656861	16	2.4	16	78	0	51	38	10	28	23	1.87
657202--657241	20	2.0	20	95	4	73	42	25	0	32	1.55
657308--657355	22	2.1	23	85	11	64	47	4	2	45	1.33
657435--657482	21	2.2	22	81	3	53	52	0	2	45	1.12
657564--657671	56	1.9	57	90	1	173	43	15	0	39	1.53
658755--658785	3	10.3	3	92	0	53	67	0	29	3	1.06
658818--658865	25	1.9	25	82	0	60	35	16	12	35	1.87
660410--660775	183	2.0	183	95	1	653	46	7	3	42	1.50
660724--660780	19	2.9	20	76	12	55	45	1	1	50	1.22
661204--661285	34	2.4	34	74	12	78	46	1	2	50	1.22
661219--661345	62	2.1	62	84	12	165	44	2	5	47	1.39
664334--664366	11	3.0	11	91	8	50	24	3	0	72	0.98
664445--664514	10	7.1	10	78	15	65	34	4	0	61	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664598--664637	2	20.5	2	89	5	64	45	0	0	55	0.99
664826--664907	14	6.1	14	74	14	66	12	7	3	76	1.11
664826--664907	27	3.1	25	75	15	76	12	7	3	76	1.11
666679--666721	18	2.4	18	84	0	59	30	11	34	23	1.90
670458--671557	85	13.0	85	83	2	1171	35	21	17	24	1.95
670489--671565	171	6.3	171	84	2	1170	35	21	17	25	1.95
673169--673202	15	2.2	16	94	5	61	41	0	0	58	0.98
673163--673200	13	3.1	13	85	7	53	36	0	0	63	0.95
673171--673210	19	2.2	18	90	4	62	42	0	0	57	0.98
673230--673272	3	13.7	3	85	9	59	30	2	0	67	1.03
673229--673273	7	6.4	7	80	19	58	28	2	0	68	1.01
673805--673840	14	2.6	14	90	0	54	16	2	2	77	1.00
673739--673831	30	3.2	28	77	7	87	13	6	2	77	1.06
675612--675717	21	5.3	21	70	21	102	33	25	16	25	1.96
675629--675734	18	5.6	17	71	21	68	32	25	15	27	1.95
675606--675734	39	3.3	39	94	0	222	32	24	16	27	1.96
679272--679301	14	2.1	15	93	6	53	50	20	0	30	1.49
689183--689224	18	2.3	18	95	0	75	14	42	19	23	1.87
704682--704964	138	2.1	137	87	4	410	39	17	14	27	1.89
710512--710598	46	1.9	44	93	4	147	27	19	25	27	1.99
713815--713860	20	2.2	20	88	7	65	45	19	0	34	1.51
725255--725625	183	2.0	184	99	0	735	37	12	12	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
729871--730053	89	2.1	89	93	0	312	33	20	10	34	1.88
734879--734917	20	1.9	21	89	5	62	35	43	17	2	1.63
735965--736000	3	12.3	3	94	5	65	36	0	0	63	0.94
736257--736367	31	3.6	31	97	0	204	45	9	7	38	1.63
737291--737332	3	14.3	3	95	5	77	33	0	0	66	0.92
739011--739114	53	2.0	52	98	1	199	32	16	10	40	1.83
749020--749275	131	2.0	131	88	4	383	34	11	15	38	1.84
758711--758763	17	3.1	17	80	15	56	79	0	13	7	0.93
760477--760533	3	19.3	3	96	3	107	33	0	0	66	0.92
761678--761931	108	2.3	108	83	4	303	20	15	16	47	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35